Author

Emma R. West

Howard Hughes Medical InstituteORCID 0000-0002-2109-016XUnclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Developmental Biology· 2 Genetics· 1 Genomics· 1 Molecular Biology· 1

Signature Assays, Organisms & Methods

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Approach:experimental assay· 4 Organism:mouse· 4 Research Focus:cell type annotation· 3 Assay:bulk RNA-seq· 2 Research Focus:clustering· 2 Organism:human· 2 Research Focus:trajectory inference· 2 Research Focus:benchmarking· 1

Frequent Co-Authors

Constance L. CepkoiD· 4 shared Sylvain W. Lapan· 3 shared Albert XuiD· 1 shared Alexander A. SousaiD· 1 shared Allen Zhu· 1 shared Autum R. Baxter‐KoenigsiD· 1 shared Becky Xu Hua FuiD· 1 shared Brendan M. Smalec· 1 shared

Activity by Year

2019-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 15 mutual co-author links

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4 shared papersDevelopmental Biology

Constance L. CepkoORCID

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Author profile →

5 papers

Recent·Most cited

Creation of a High-Resolution, Continually Evolvable Lineage Tracer

Ryan Nicholas Delgado, Yichen Si, Rebecca Andersen, ChangHee Lee, Henry L. Bushnell, Jordan L. Doman, Smriti Pandey, Alexander A. Sousa, Emma R. West, Carina E. Dagotto, David R. Liu, Constance L. Cepko

The paper introduces SCRIBBLE, a lineage tracing tool that enables high-resolution, multigenerational lineage tracking in embryonic mouse retina.

bioRxiv · Oct 2, 2026 · PreprintDevelopmental Biology

Genome-wide quantification of RNA flow across subcellular compartments reveals determinants of the mammalian transcript life cycle

Robert Ietswaart, Brendan M. Smalec, Albert Xu, Karine Choquet, Erik McShane, Ziad Mohamoud Jowhar, Chantal K. Guegler, Autum R. Baxter‐Koenigs, Emma R. West, Becky Xu Hua Fu, Luke A. Gilbert, Stephen N. Floor, L. Stirling Churchman

The paper quantifies RNA flow across subcellular compartments using TimeLapse-seq and identifies factors influencing mRNA life cycles.

Molecular Cell · Jul 1, 2024Peer-reviewedGenomics

Spatiotemporal patterns of neuronal subtype genesis suggest hierarchical development of retinal diversity

Emma R. West, Sylvain W. Lapan, ChangHee Lee, Kathrin M Kajderowicz, Xihao Li, Constance L. Cepko

The paper maps the spatiotemporal development of bipolar interneuron subtypes in the mammalian retina, revealing a hierarchical model of subtype genesis through ordered birthdates and oscillatory waves.

Cell Reports · Jan 1, 2022Peer-reviewedDevelopmental Biology

Probe-Seq enables transcriptional profiling of specific cell types from heterogeneous tissue by RNA-based isolation

Ryoji Amamoto, M Garcia, Emma R. West, Jiho Choi, Sylvain W. Lapan, Elizabeth A. Lane, Norbert Perrimon, Constance L. Cepko

Probe-Seq isolates and profiles specific cell types from heterogeneous tissues using RNA-based fluorescence sorting, applicable across multiple organisms.

eLife · Dec 9, 2019Peer-reviewedMolecular Biology

SABER enables highly multiplexed and amplified detection of DNA and RNA in cells and tissues

Jocelyn Y. Kishi, Sylvain W. Lapan, Brian J. Beliveau, Emma R. West, Allen Zhu, Hiroshi M. Sasaki, Sinem K. Saka, Yu Wang, Constance L. Cepko, Peng Yin

SABER enables highly multiplexed and amplified detection of DNA and RNA in cells and tissues by using oligo-based probes with long DNA concatemers for sensitive fluorescent detection.

Nature Methods · May 20, 2019Peer-reviewedGenetics